GNU bug report logs - #78536
[PATCH] gnu: Add python-torchdiffeq.

Previous Next

To reply to this bug, email your comments to 78536 AT debbugs.gnu.org.
There is no need to reopen the bug first.

Toggle the display of automated, internal messages from the tracker.

Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):

From: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Cc: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
Subject: [PATCH] gnu: Add python-torchdiffeq.
Date: Wed, 21 May 2025 16:01:01 +0200

* gnu/packages/bioinformatics.scm (python-torchdiffeq): New variable.

Change-Id: Ic2ab73250b60f1733d2721ebd6d3abae719c5a1f
---
 gnu/packages/bioinformatics.scm | 35 +++++++++++++++++++++++++++++++++
 1 file changed, 35 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 72fa9d946f..18f929dff7 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -4056,6 +4056,41 @@ (define-public python-telomerecat
 telomerecat can produce an estimate in ~1 hour.")
     (license license:gpl3)))
 
+(define-public python-torchdiffeq
+  ;; There are neither releases, nor tags.
+  (let ((commit "a88aac53cae738addee44251288ce5be9a018af3")
+        (revision "0"))
+    (package
+      (name "python-torchdiffeq")
+      (version (git-version "0.2.5" revision commit))
+      (source
+       (origin
+         (method git-fetch)
+         (uri (git-reference
+               (url "https://github.com/rtqichen/torchdiffeq")
+               (commit commit)))
+         (file-name (git-file-name name version))
+         (sha256
+          (base32 "0c2zqbdxqvd5abfpk0im6rcy1ij39xvrmixc6l9znb6bhcxk2jra"))))
+      (build-system pyproject-build-system)
+      (arguments
+       `(#:phases (modify-phases %standard-phases
+                    (replace 'check
+                      (lambda* (#:key tests? #:allow-other-keys)
+                        (when tests?
+                          ;; Run all test files in 'tests/' but skip test_seminorm
+                          (apply invoke "pytest" "-k" "not test_seminorm"
+                                 (find-files "tests" "\\.py$"))))))))
+      (propagated-inputs (list python-numpy python-scipy python-pytorch))
+      (native-inputs (list python-pytest python-setuptools))
+      (home-page "https://github.com/rtqichen/torchdiffeq")
+      (synopsis "ODE solvers and adjoint sensitivity analysis in PyTorch")
+      (description
+       "This tool provides ordinary differential equation solvers implemented in PyTorch.
+Backpropagation through ODE solutions is supported using the adjoint method for constant
+memory cost.")
+      (license license:expat))))
+
 (define-public python-bioframe
   (package
     (name "python-bioframe")

base-commit: 450a361532573a02389530a6a80b7821683ed41b
-- 
2.39.5

Message #10 received at 78536-done <at> debbugs.gnu.org (full text, mbox):

From: Ricardo Wurmus <rekado <at> elephly.net>
To: 78536-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add python-torchdiffeq
Date: Wed, 21 May 2025 17:19:44 +0200

Applied and pushed with commit 
d3d157bc61c4a6a3fac11e33d26f6f2a72a24151.

I've moved the package to machine-learning and used #:test-flags 
to
avoid having to replace the 'check phase.

-- 
Ricardo

Previous Next

GNU bug tracking system
Copyright (C) 1999 Darren O. Benham, 1997,2003 nCipher Corporation Ltd, 1994-97 Ian Jackson.